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    Tsr3 TSR3 ribosome maturation factor [ Rattus norvegicus (Norway rat) ]

    Gene ID: 360494, updated on 15-Jun-2024

    Summary

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    Official Symbol
    Tsr3provided by RGD
    Official Full Name
    TSR3 ribosome maturation factorprovided by RGD
    Primary source
    RGD:1565744
    See related
    Ensembl:ENSRNOG00000017858 AllianceGenome:RGD:1565744
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1565744
    Summary
    Predicted to enable transferase activity. Predicted to be involved in enzyme-directed rRNA pseudouridine synthesis and maturation of SSU-rRNA. Predicted to be located in cytoplasm. Orthologous to human TSR3 (TSR3 ribosome maturation factor). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 106.3), Kidney (RPKM 73.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Tsr3 in Genome Data Viewer
    Location:
    10q12
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (14761656..14764061)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (14257161..14259562)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (14598014..14600576)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120095050 Neighboring gene unk like zinc finger Neighboring gene N-acetylglucosamine-1-phosphate transferase subunit gamma Neighboring gene BAI1-associated protein 3 Neighboring gene microRNA 3547 Neighboring gene ubiquitin-conjugating enzyme E2I

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Ribosome biogenesis factor Tsr3 is the aminocarboxypropyl transferase responsible for 18S rRNA hypermodification in yeast and humans. Meyer B, et al. Nucleic Acids Res, 2016 May 19. PMID 27084949, Free PMC Article
    2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables 18S rRNA aminocarboxypropyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables S-adenosyl-L-methionine binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in enzyme-directed rRNA pseudouridine synthesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in maturation of SSU-rRNA IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    18S rRNA aminocarboxypropyltransferase
    Names
    TSR3, 20S rRNA accumulation
    TSR3, acp transferase ribosome maturation factor
    ribosome biogenesis protein TSR3 homolog
    NP_001101738.1
    NP_001386446.1
    NP_001386448.1
    XP_038942201.1

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001108268.2 → NP_001101738.1  18S rRNA aminocarboxypropyltransferase isoform 3

      See identical proteins and their annotated locations for NP_001101738.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      A6HD11
      Conserved Domains (3) summary
      PRK02287
      Location:4 → 162
      PRK02287; hypothetical protein; Provisional
      pfam04034
      Location:35 → 158
      DUF367; Domain of unknown function (DUF367)
      pfam04068
      Location:1 → 31
      RLI; Possible Fer4-like domain in RNase L inhibitor, RLI

    2. NM_001399517.1 → NP_001386446.1  18S rRNA aminocarboxypropyltransferase isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010
      Conserved Domains (3) summary
      cl38908
      Location:14 → 57
      BTB_POZ; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain superfamily
      pfam04034
      Location:96 → 214
      Ribo_biogen_C; Ribosome biogenesis protein, C-terminal
      pfam04068
      Location:60 → 92
      RLI; Possible Fer4-like domain in RNase L inhibitor, RLI

    3. NM_001399519.1 → NP_001386448.1  18S rRNA aminocarboxypropyltransferase isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      A6HD10, D4A6X9
      Related
      ENSRNOP00000061431.2, ENSRNOT00000068336.2
      Conserved Domains (3) summary
      cl38908
      Location:14 → 57
      BTB_POZ; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain superfamily
      pfam04034
      Location:96 → 221
      Ribo_biogen_C; Ribosome biogenesis protein, C-terminal
      pfam04068
      Location:60 → 92
      RLI; Possible Fer4-like domain in RNase L inhibitor, RLI

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086028.1 Reference GRCr8

      Range
      14761656..14764061
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039086273.2 → XP_038942201.1  18S rRNA aminocarboxypropyltransferase isoform X1

      Conserved Domains (2) summary
      cl38908
      Location:14 → 57
      BTB_POZ; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain superfamily
      cl27200
      Location:60 → 166
      Ribo_biogen_C; Ribosome biogenesis protein, C-terminal
    Nucleotide Protein Strain
    Heading Accession and Version

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